Hi Ansaheric,
On the PC_EPMA software, locate your map (in the EPMA data) and double click on it. It should open the software "NMap" which is used for processing element maps. Under the menu "File", choose "export", and "numerically...". It opens a side-box with the option to save a file with either one map per line or a matrix. I believe this is what you want. The other export option (Image...) will produce TIF files using whatever colour and level modification you have on your maps.
Best,
Julien